Q12874 (SF3A3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Splicing factor 3A subunit 3

Alternative name(s):
SF3a60
Spliceosome-associated protein 61
Short name=SAP 61

Gene names

Name:	SF3A3
Synonyms:	SAP61

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	501 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Subunit of the splicing factor SF3A required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of the branch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E' complex.
Subunit structure	Identified in the spliceosome C complex. Component of splicing factor SF3A which is composed of three subunits; SF3A3/SAP61, SF3A2/SAP62, SF3A1/SAP114. SF3A associates with the splicing factor SF3B and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex (U2 snRNP). Interacts with SF3A1, through its N-terminal region. Ref.8
Subcellular location	Nucleus speckle.
Tissue specificity	Ubiquitous.
Sequence similarities	Belongs to the SF3A3 family. Contains 1 matrin-type zinc finger.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing
Cellular component	Nucleus Spliceosome
Domain	Zinc-finger
Ligand	Metal-binding Zinc
PTM	Acetylation Glycoprotein Phosphoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	mRNA 3'-splice site recognition Traceable author statement PubMed 15647371. Source: HGNC
Cellular_component	catalytic step 2 spliceosome Inferred from direct assay Ref.8. Source: UniProtKB nuclear speck Inferred from electronic annotation. Source: UniProtKB-SubCell nucleoplasm Traceable author statement. Source: Reactome
Molecular_function	nucleic acid binding Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
ORF	Q9Q2G4	3	EBI-1051880,EBI-6248094	From a different organism.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 501

501

Splicing factor 3A subunit 3

PRO_0000174318

Regions

Zinc finger

406 – 437

32

Matrin-type

Compositional bias

354 – 362

9

Poly-Glu

Amino acid modifications

Modified residue

1

1

N-acetylmethionine Ref.6

Modified residue

299

1

Phosphoserine Ref.12

Modified residue

365

1

Phosphoserine Ref.10 Ref.12 Ref.15

Modified residue

367

1

Phosphoserine Ref.10 Ref.12 Ref.15

Modified residue

369

1

Phosphoserine Ref.10 Ref.12 Ref.15

Glycosylation

119

1

N-linked (GlcNAc...) Ref.11

Experimental info

Sequence conflict

176

1

E → G in CAA57388. Ref.2

Secondary structure

1

.

.

.

501

Helix Strand Turn

Details...

Helix

80 – 96

17

Sequences

	Sequence		Length	Mass (Da)
	Q12874 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 6E6F6EA17777E1E2	FASTA	501	58,849
	10 20 30 40 50 60 METILEQQRR YHEEKERLMD VMAKEMLTKK STLRDQINSD HRTRAMQDRY MEVSGNLRDL 70 80 90 100 110 120 YDDKDGLRKE ELNAISGPNE FAEFYNRLKQ IKEFHRKHPN EICVPMSVEF EELLKARENP 130 140 150 160 170 180 SEEAQNLVEF TDEEGYGRYL DLHDCYLKYI NLKASEKLDY ITYLSIFDQL FDIPKERKNA 190 200 210 220 230 240 EYKRYLEMLL EYLQDYTDRV KPLQDQNELF GKIQAEFEKK WENGTFPGWP KETSSALTHA 250 260 270 280 290 300 GAHLDLSAFS SWEELASLGL DRLKSALLAL GLKCGGTLEE RAQRLFSTKG KSLESLDTSL 310 320 330 340 350 360 FAKNPKSKGT KRDTERNKDI AFLEAQIYEY VEILGEQRHL THENVQRKQA RTGEEREEEE 370 380 390 400 410 420 EEQISESESE DEENEIIYNP KNLPLGWDGK PIPYWLYKLH GLNINYNCEI CGNYTYRGPK 430 440 450 460 470 480 AFQRHFAEWR HAHGMRCLGI PNTAHFANVT QIEDAVSLWA KLKLQKASER WQPDTEEEYE 490 500 DSSGNVVNKK TYEDLKRQGL L

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Specific protein-protein interactions between the essential mammalian spliceosome-associated proteins SAP 61 and SAP 114." Chiara M.D., Champion-Arnaud P., Buvoli M., Nadal-Ginard B., Reed R. Proc. Natl. Acad. Sci. U.S.A. 91:6403-6407(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Cervix adenocarcinoma.
[2]	"Splicing factor SF3a60 is the mammalian homologue of PRP9 of S.cerevisiae: the conserved zinc finger-like motif is functionally exchangeable in vivo." Kraemer A., Legrain P., Mulhauser F., Groening K., Brosi R., Bilbe G. Nucleic Acids Res. 22:5223-5228(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Cervix adenocarcinoma.
[3]	"The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R. Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Eye and Lung.
[6]	Bienvenut W.V. Submitted (OCT-2004) to UniProtKB Cited for: PROTEIN SEQUENCE OF 1-9; 265-273 AND 292-303, ACETYLATION AT MET-1, MASS SPECTROMETRY. Tissue: B-cell lymphoma.
[7]	"Functional association of U2 snRNP with the ATP-independent spliceosomal complex E." Das R., Zhou Z., Reed R. Mol. Cell 5:779-787(2000) [PubMed] [Europe PMC] [Abstract] Cited for: CHARACTERIZATION OF THE SPLICEOSOME.
[8]	"Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis." Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J. RNA 8:426-439(2002) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
[9]	"Immunoaffinity profiling of tyrosine phosphorylation in cancer cells." Rush J., Moritz A., Lee K.A., Guo A., Goss V.L., Spek E.J., Zhang H., Zha X.-M., Polakiewicz R.D., Comb M.J. Nat. Biotechnol. 23:94-101(2005) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[10]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-365; SER-367 AND SER-369, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[11]	"Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry." Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H. J. Proteome Res. 8:651-661(2009) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-119, MASS SPECTROMETRY. Tissue: Liver.
[12]	"Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-299; SER-365; SER-367 AND SER-369, MASS SPECTROMETRY. Tissue: Leukemic T-cell.
[13]	"Lysine acetylation targets protein complexes and co-regulates major cellular functions." Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M. Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[14]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[15]	"System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation." Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B. Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-365; SER-367 AND SER-369, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U08815 mRNA. Translation: AAA19625.1.
X81789 mRNA. Translation: CAA57388.1.
AL603790 Genomic DNA. Translation: CAH69930.1.
CH471059 Genomic DNA. Translation: EAX07304.1.
CH471059 Genomic DNA. Translation: EAX07305.1.
BC002395 mRNA. Translation: AAH02395.1.
BC011523 mRNA. Translation: AAH11523.1.

IPI

IPI00029764.

PIR

A55749.

RefSeq

NP_006793.1. NM_006802.2.

UniGene

Hs.77897.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2DT7	NMR	-	A	71-107	[»]

ProteinModelPortal

Q12874.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-882N.

IntAct

Q12874. 8 interactions.

MINT

MINT-1467744.

STRING

9606.ENSP00000362110.

PTM databases

PhosphoSite

Q12874.

Polymorphism databases

DMDM

17380310.

Proteomic databases

PaxDb

Q12874.

PeptideAtlas

Q12874.

PRIDE

Q12874.

Protocols and materials databases

DNASU

10946.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000373019; ENSP00000362110; ENSG00000183431.

GeneID

10946.

KEGG

hsa:10946.

UCSC

uc001cci.3. human.

Organism-specific databases

CTD

10946.

GeneCards

GC01M038422.

HGNC

HGNC:10767. SF3A3.

HPA

HPA032054.

MIM

605596. gene.

neXtProt

NX_Q12874.

PharmGKB

PA35685.

GenAtlas

Search...

Phylogenomic databases

eggNOG

COG5188.

HOGENOM

HOG000160935.

HOVERGEN

HBG054452.

InParanoid

Q12874.

KO

K12827.

OMA

YITYLST.

OrthoDB

EOG42FSHC.

PhylomeDB

Q12874.

Enzyme and pathway databases

Reactome

REACT_1675. mRNA Processing.
REACT_71. Gene Expression.

Gene expression databases

ArrayExpress

Q12874.

Bgee

Q12874.

CleanEx

HS_SF3A3.

Genevestigator

Q12874.

GermOnline

ENSG00000183431. Homo sapiens.

Family and domain databases

InterPro

IPR024598. DUF3449.
IPR021966. SF3a60_bindingd.
IPR015880. Znf_C2H2-like.
IPR000690. Znf_C2H2_matrin.
[Graphical view]

Pfam

PF11931. DUF3449. 1 hit.
PF12108. SF3a60_bindingd. 1 hit.
[Graphical view]

SMART

SM00355. ZnF_C2H2. 1 hit.
[Graphical view]

PROSITE

PS50171. ZF_MATRIN. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChiTaRS

SF3A3. human.

EvolutionaryTrace

Q12874.

GenomeRNAi

10946.

NextBio

41589.

SOURCE

Search...

Entry information

Entry name

SF3A3_HUMAN

Accession

Primary (citable) accession number: Q12874
Secondary accession number(s): D3DPT5, Q15460, Q5VT87

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 29, 2001
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 136 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.